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Method for evaluating influences of drugs on inter-module relations in biomolecule network

A biomolecular network and inter-module technology, applied in the field of impact evaluation, can solve the problem of few research methods

Active Publication Date: 2017-05-24
王忠 +1
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  • Summary
  • Abstract
  • Description
  • Claims
  • Application Information

AI Technical Summary

Problems solved by technology

However, there are still few research methods for the quantitative evaluation of the relationship between modules as drug targets

Method used

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  • Method for evaluating influences of drugs on inter-module relations in biomolecule network
  • Method for evaluating influences of drugs on inter-module relations in biomolecule network
  • Method for evaluating influences of drugs on inter-module relations in biomolecule network

Examples

Experimental program
Comparison scheme
Effect test

Embodiment 1

[0080] This example uses the gene chip experimental data of the effective components of Qingkailing intervening in the mouse cerebral ischemia model as an example, (the data has been uploaded to the ArrayExpress database, Http: / / www.ebi.ac.uk / arrayexpress / ), construct a weighted gene co-expression network, specifically describe the method of the present invention:

[0081] Based on the weighted gene co-expression network and module division of each component of Qingkailing intervening in the cerebral ischemia mouse model, cerebral ischemia model group (Vehicle), baicalin (BA) group, geniposide (JA) group, cholic acid The module division of (UA) group and mother of pearl (CM) group is shown in Table 3.

[0082] Table 3 Module division of gene co-expression network

[0083]

[0084] Step 1, use the weighted co-expression network analysis (WGCNA) tool (a module division method based on clustering algorithm, source Peter Langfelder, Steve Horvath. WGCNA: an R package for weigh...

Embodiment 2

[0112] Taking the effective components of Qingkailing to intervene in the protein interaction network of the mouse cerebral ischemia model as an example, the method of the present invention is described in detail:

[0113] Based on the protein interaction network and module division of each component of Qingkailing intervening in the cerebral ischemia mouse model, the module division of the cerebral ischemia model group and the baicalin (BA) group (see Zhang Yingying, Qingkailing multi-component intervention Identification and comparison of main modules of protein network in cerebral ischemia model [D], Chinese Academy of Chinese Medical Sciences, 2014), as shown in Table 9.

[0114] Table 9 Module division of protein interaction network

[0115]

[0116] Step 1. By mapping the differential genes before and after the drug intervention to the string protein database, construct the protein interaction network before and after the intervention of each component of Qingkailing ...

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Abstract

The invention provides a method for evaluating influences of drugs on inter-module relations in a biomolecule network, and the method targets complex networks of biomolecules, such as a protein-protein interaction network, a gene expression regulation network, a biological metabolism network, an epigenetic network, a phenotype network and a signal transduction network. The method mainly comprises the steps that module recognition is performed on the biomolecule network before and after drug intervention; inter-module direct relation parameters and inter-module indirect relation parameters are calculated, screened and integrated based on two groups of recognized modules to obtain inter-module coordination coefficients of two arbitrary modules in each group of modules; a module network is constructed based on the inter-module coordination coefficients; and module network topological parameters before drug intervention and module network topological parameters after drug intervention are compared, or module network connectors before and after drug intervention are recognized, and the dissociation rate of the connectors is calculated.

Description

technical field [0001] The invention belongs to the technical field of biological information. Specifically, the present invention relates to a method for evaluating the influence of drug intervention on the relationship between modules in complex biomolecular networks such as protein interaction networks and gene expression regulation networks in disease states. Background technique [0002] There are multiple interactions among genes, proteins, metabolites, etc. Using the method of graph theory, these genes, proteins, metabolites and other molecules can be regarded as individual points, and the interaction between them is regarded as edges, forming a biomolecular network with points and edges as elements, and the network Small groups of closely connected molecules are called modules. [0003] As the multi-target nature of drugs is supported by more and more evidence, the research on modules as drug targets is gradually being used in many fields such as drug development a...

Claims

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Application Information

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IPC IPC(8): G06F19/00
CPCG16C20/50
Inventor 王忠王朋倩
Owner 王忠
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